PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Araip.B6JY4

Organism

Arachis ipaensis

Taxonomic ID

130454

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis

Family

ARF

Protein Properties

Length: 833aa MW: 92753.2 Da PI: 6.7601

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araip.B6JY4	genome	NCGR_PGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.5	5.3e-23	125	226	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f+k+lt sd++++g +++ +++a+e+ + k++ +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F + +++el Araip.B6JY4 125 FCKTLTASDTSTHGGFSVLRRHADEClppldmS-KQPPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGENGEL 219 99***************************63.4445569*********************************************..449999 PP EEEEE-S CS B3 93 vvkvfrk 99 +v+v+r+ Araip.B6JY4 220 RVGVRRA 226 ****996 PP
2	Auxin_resp	117.7	9.3e-39	251	333	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha+ t+++F+v+Y+Pr+s++eF+v++++++++lk+++++GmRfkm+fe+e+++e+r++Gt+vg++d+d+ rWp+SkWr+Lk Araip.B6JY4 251 AWHAILTGTIFTVYYKPRTSPAEFIVPYDQYMESLKNNYTIGMRFKMRFEGEEAPEQRFTGTIVGIEDADSKRWPESKWRCLK 333 79*******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	2.35E-40	121	254	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.3E-40	122	240	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.38E-20	123	225	No hit	No description
SMART	SM01019	3.7E-22	125	227	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.434	125	227	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.9E-21	125	226	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.0E-36	251	333	IPR010525	Auxin response factor
Pfam	PF02309	2.3E-12	686	790	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	24.392	702	784	IPR000270	PB1 domain
SuperFamily	SSF54277	2.11E-11	703	779	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009725	Biological Process	response to hormone
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 833 aa Download sequence Send to blast
MASSEAATTI KVNDAEAALY RELWHACAGP LVTVPREGER VFYFPQGHIE QVEASTNQVA 60 DQHMPVYDLP SKILCRVINV QLKAEPDTDE VFAQITLLPE QNQDENAVEK EPPLPPPPRF 120 HVHSFCKTLT ASDTSTHGGF SVLRRHADEC LPPLDMSKQP PTQELVAKDL HANEWRFRHI 180 FRGQPRRHLL QSGWSVFVSS KRLVAGDAFI FLRGENGELR VGVRRAMRQQ GNVPSSVISS 240 HSMHLGVLAT AWHAILTGTI FTVYYKPRTS PAEFIVPYDQ YMESLKNNYT IGMRFKMRFE 300 GEEAPEQRFT GTIVGIEDAD SKRWPESKWR CLKVRWDETS NIPRPERVSP WKIEPALAPP 360 ALNPLSMPRA KRPRSNVPNV PIQSSQDSSV LTREASSKVS ADPSPANGFP RVLQGQEFST 420 LRGNFAESNE SDTAEKSVVW PPVDDEKVDV VSMSRRYGSE NWMSMGRPDT SYSDLLSGFG 480 ASGDPSHPSL GDQMGGPVAY SARKHVLDHE GKLNVHHPWP AMSSGFSLNL LEPSTKESPR 540 GSETPYQARG NLRYGPFSEY PVIHINKVEH PHGKLMLPPP PTQYESPCSR DLMSKPMSAK 600 TYETAKPKEG DCKLFGISLI SSPTAAPEPS VSHGSGTTEP AGQAHLKSHH QRTSENDQKT 660 EQSKGLKSAD GQVIVDDHDK PSKTSQVHLK DGQAKPPSSS ARSCTKVHKK GIALGRSVDL 720 TKYSNYDELV AELDQLFEFG GELMSTRKDW LIVYTDNEGD MMLVGDDPWQ EFCAMVRKIY 780 IYPKEEIQKM SPGTLSSRNE ENHSASEGTE AKEVKSQLHQ KLNSESVATV HDN

Sequence ? help Back to Top

Protein Sequence Length: 833 aa Download sequence Send to blast

MASSEAATTI KVNDAEAALY RELWHACAGP LVTVPREGER VFYFPQGHIE QVEASTNQVA  60
DQHMPVYDLP SKILCRVINV QLKAEPDTDE VFAQITLLPE QNQDENAVEK EPPLPPPPRF  120
HVHSFCKTLT ASDTSTHGGF SVLRRHADEC LPPLDMSKQP PTQELVAKDL HANEWRFRHI  180
FRGQPRRHLL QSGWSVFVSS KRLVAGDAFI FLRGENGELR VGVRRAMRQQ GNVPSSVISS  240
HSMHLGVLAT AWHAILTGTI FTVYYKPRTS PAEFIVPYDQ YMESLKNNYT IGMRFKMRFE  300
GEEAPEQRFT GTIVGIEDAD SKRWPESKWR CLKVRWDETS NIPRPERVSP WKIEPALAPP  360
ALNPLSMPRA KRPRSNVPNV PIQSSQDSSV LTREASSKVS ADPSPANGFP RVLQGQEFST  420
LRGNFAESNE SDTAEKSVVW PPVDDEKVDV VSMSRRYGSE NWMSMGRPDT SYSDLLSGFG  480
ASGDPSHPSL GDQMGGPVAY SARKHVLDHE GKLNVHHPWP AMSSGFSLNL LEPSTKESPR  540
GSETPYQARG NLRYGPFSEY PVIHINKVEH PHGKLMLPPP PTQYESPCSR DLMSKPMSAK  600
TYETAKPKEG DCKLFGISLI SSPTAAPEPS VSHGSGTTEP AGQAHLKSHH QRTSENDQKT  660
EQSKGLKSAD GQVIVDDHDK PSKTSQVHLK DGQAKPPSSS ARSCTKVHKK GIALGRSVDL  720
TKYSNYDELV AELDQLFEFG GELMSTRKDW LIVYTDNEGD MMLVGDDPWQ EFCAMVRKIY  780
IYPKEEIQKM SPGTLSSRNE ENHSASEGTE AKEVKSQLHQ KLNSESVATV HDN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	18	355	18	354	Auxin response factor 1
4ldw_A	0.0	18	355	18	354	Auxin response factor 1
4ldw_B	0.0	18	355	18	354	Auxin response factor 1
4ldx_A	0.0	18	355	18	354	Auxin response factor 1
4ldx_B	0.0	18	355	18	354	Auxin response factor 1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255\|RuleBase:RU004561, ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229, ECO:0000269\|PubMed:27645097, ECO:0000269\|PubMed:28167023}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araip.B6JY4

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229, ECO:0000269\|PubMed:27645097, ECO:0000269\|PubMed:28167023}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016169970.1	0.0	auxin response factor 2
Swissprot	Q2LAJ3	0.0	ARF2A_SOLLC; Auxin response factor 2A
TrEMBL	A0A445C1V1	0.0	A0A445C1V1_ARAHY; Auxin response factor
STRING	GLYMA04G37760.1	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF3281	33	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G62000.3	0.0	auxin response factor 2

Publications ? help Back to Top
Tomato Genome Consortium The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012. 485(7400): p. 635-41 [PMID:22660326] Breitel DA, et al. AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening. PLoS Genet., 2016. 12(3): p. e1005903 [PMID:26959229] Xu T, et al. SlARF2a plays a negative role in mediating axillary shoot formation. Sci Rep, 2016. 6: p. 33728 [PMID:27645097] Ren Z,Liu R,Gu W,Dong X The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence. Plant Sci., 2017. 256: p. 103-111 [PMID:28167023]